Updated: Tue Jan 6 15:53:19 2015

DMR identification with methyl_diff

Background


UMR summary and sanity check

Sample Total.DMR Hyper.DMR Hypo.DMR
Cortex-HuFNSC02_Cortex-HuFNSC04 1283 179 1104
GE-HuFNSC02_GE-HuFNSC04 3002 722 2280

UMR asymmetry

GREAT enrichment for GW-associated UMRs

UMR Genomic breakdown

Proximal UMRs and DE genes

proximal.DMRs unique.genes DE.DMRs unique.DE.genes same.direction
Cortex04.UMRs 7 7 0 0 0
Cortex02.UMRs 215 215 24 19 21
GE04.UMRs 37 36 6 5 3
GE02.UMRs 402 402 64 57 49

Proximal 13-week UMRs in both Cortex and GE

id name description
ENSG00000189334 S100A14 S100_calcium_binding_protein_A14_[Source:HGNC_Symbol;Acc:18901]
ENSG00000237693 IRGM immunity-related_GTPase_family,M[Source:HGNC_Symbol;Acc:29597]
ENSG00000124564 SLC17A3 solute_carrier_family_17_(sodium_phosphate),member3_[Source:HGNC_Symbol;Acc:10931]

Proximal GE 13-week UMRs with DE genes

id name description DM DE
ENSG00000134954 ETS1 v-ets_erythroblastosis_virus_E26_oncogene_homolog_1_(avian)_[Source:HGNC_Symbol;Acc:3488] hyper UP
ENSG00000136352 NKX2-1 NK2_homeobox_1_[Source:HGNC_Symbol;Acc:11825] hyper UP
ENSG00000165588 OTX2 orthodenticle_homeobox_2_[Source:HGNC_Symbol;Acc:8522] hyper UP
ENSG00000231421 hyper DN
ENSG00000155760 FZD7 frizzled_family_receptor_7_[Source:HGNC_Symbol;Acc:4045] hyper DN

Proximal 17-week UMRs with DE genes in both Cortex and GE

id name description DM DE
ENSG00000255737 NA HCG2014417,isoformCRA_aUncharacterized_proteincDNA_FLJ59598_[Source:UniProtKB/TrEMBL;Acc:B7Z718] hypo UP
ENSG00000167178 ISLR2 immunoglobulin_superfamily_containing_leucine-rich_repeat_2_[Source:HGNC_Symbol;Acc:29286] hypo UP
ENSG00000161999 JMJD8 jumonji_domain_containing_8_[Source:HGNC_Symbol;Acc:14148] hypo UP
ENSG00000051523 CYBA cytochrome_b-245,alphapolypeptide_[Source:HGNC_Symbol;Acc:2577] hypo UP
ENSG00000169515 CCDC8 coiled-coil_domain_containing_8_[Source:HGNC_Symbol;Acc:25367] hypo UP
ENSG00000205927 OLIG2 oligodendrocyte_lineage_transcription_factor_2_[Source:HGNC_Symbol;Acc:9398] hypo UP
ENSG00000189060 H1F0 H1_histone_family,member0_[Source:HGNC_Symbol;Acc:4714] hypo UP
ENSG00000146904 EPHA1 EPH_receptor_A1_[Source:HGNC_Symbol;Acc:3385] hypo UP
ENSG00000165072 MAMDC2 MAM_domain_containing_2_[Source:HGNC_Symbol;Acc:23673] hypo UP

UMRs overlapping with TFBS

TF UMR17week_Cortex UMR13week_Cortex Ratio_Cortex UMR17week_GE UMR13week_GE Ratio_GE
MAZ 133 5 26.6000 319 12 26.5833
GTF2F1 28 1 28.0000 103 2 51.5000
ZBTB7A 97 3 32.3333 201 3 67.0000
HMGN3 66 2 33.0000 131 4 32.7500
NRF1 34 1 34.0000 64 1 64.0000
MXI1 112 3 37.3333 262 7 37.4286
E2F4 50 1 50.0000 110 1 110.0000
CCNT2 87 1 87.0000 148 4 37.0000
E2F6 140 1 140.0000 263 8 32.8750

UMR enrichment at chromosome ends

DE genes summary

UP DN DE GW type Sample
1 284 281 565 GW17-GW15 cortex GW17-GW15.1_cortex
2 365 165 530 GW17-GW13 cortex GW17-GW13.1_cortex
3 398 283 681 GW17-GW15 cortex GW17-GW15.2_cortex
4 497 225 722 GW17-GW13 cortex GW17-GW13.2_cortex
5 459 183 642 GW15-GW13 cortex GW15-GW13_cortex
6 587 274 861 GW17-GW15 GE GW17-GW15.1_GE
7 645 238 883 GW17-GW13 GE GW17-GW13.1_GE
8 609 312 921 GW17-GW15 GE GW17-GW15.2_GE
9 610 259 869 GW17-GW13 GE GW17-GW13.2_GE
10 313 232 545 GW15-GW13 GE GW15-GW13_GE
11 74 75 173 GW17-GW15 shared GW17-GW15.1_shared
12 239 65 311 GW17-GW13 shared GW17-GW13.1_shared
13 78 75 180 GW17-GW15 shared GW17-GW15.2_shared
14 282 84 372 GW17-GW13 shared GW17-GW13.2_shared
15 79 74 166 GW15-GW13 shared GW15-GW13_shared

Stage-specific DE gene profiles

  • Cortex stage-specific DE genes are mostly turned on during GW13-GW15, while GE stage-specific DE genes are mostly turned on during GW15-GW17. This supports the clustering in coding gene RPKM, exon RPKM and miRNA RPM that in cortex GW15 clustered with GW17, and in GE GW15 clustered with GW13.

  • Genes activated during GW13-GW15 in cortex, not GE
    id name description
    ENSG00000086570 FAT2 FAT_tumor_suppressor_homolog_2_(Drosophila)_[Source:HGNC_Symbol;Acc:3596]
    ENSG00000117152 RGS4 regulator_of_G-protein_signaling_4_[Source:HGNC_Symbol;Acc:10000]
    ENSG00000204577 LILRB3 leukocyte_immunoglobulin-like_receptor,subfamilyB_(with_TM_and_ITIM_domains),member3_[Source:HGNC_Symbol;Acc:6607]
    ENSG00000115353 TACR1 tachykinin_receptor_1_[Source:HGNC_Symbol;Acc:11526]
    ENSG00000117281 CD160 CD160_molecule_[Source:HGNC_Symbol;Acc:17013]
    ENSG00000144130 NT5DC4 5’-nucleotidase_domain_containing_4_[Source:HGNC_Symbol;Acc:27678]
    ENSG00000166501 PRKCB protein_kinase_C,beta[Source:HGNC_Symbol;Acc:9395]
    ENSG00000074276 CDHR2 cadherin-related_family_member_2_[Source:HGNC_Symbol;Acc:18231]
    ENSG00000185105 MYADML2 myeloid-associated_differentiation_marker-like_2_[Source:HGNC_Symbol;Acc:34548]
    ENSG00000075073 TACR2 tachykinin_receptor_2_[Source:HGNC_Symbol;Acc:11527]
    ENSG00000206129 NA HCG2045177Uncharacterized_proteincDNA_FLJ45743_fis,cloneKIDNE2016464_[Source:UniProtKB/TrEMBL;Acc:Q6ZS83]
    ENSG00000138653 NDST4 N-deacetylase/N-sulfotransferase_(heparan_glucosaminyl)4[Source:HGNC_Symbol;Acc:20779]
    ENSG00000163357 DCST1 DC-STAMP_domain_containing_1_[Source:HGNC_Symbol;Acc:26539]
    ENSG00000171873 ADRA1D adrenergic,alpha-1D-,receptor_[Source:HGNC_Symbol;Acc:280]
    ENSG00000212122 TSSK1B testis-specific_serine_kinase_1B_[Source:HGNC_Symbol;Acc:14968]
    ENSG00000186583 SPATC1 spermatogenesis_and_centriole_associated_1_[Source:HGNC_Symbol;Acc:30510]
    ENSG00000204323 C17orf109 chromosome_17_open_reading_frame_109_[Source:HGNC_Symbol;Acc:40030]
    ENSG00000116176 TPSG1 tryptase_gamma_1_[Source:HGNC_Symbol;Acc:14134]
    ENSG00000128617 OPN1SW opsin_1_(cone_pigments),short-wave-sensitive[Source:HGNC_Symbol;Acc:1012]
    ENSG00000156113 KCNMA1 potassium_large_conductance_calcium-activated_channel,subfamilyM,alphamember_1_[Source:HGNC_Symbol;Acc:6284]
    ENSG00000006453 NA Brain-specific_angiogenesis_inhibitor_1-associated_protein_2-like_protein_1_[Source:UniProtKB/Swiss-Prot;Acc:Q9UHR4]
    ENSG00000166278 C2 complement_component_2_[Source:HGNC_Symbol;Acc:1248]
    ENSG00000233198 RNF224 ring_finger_protein_224_[Source:HGNC_Symbol;Acc:41912]
    ENSG00000146221 TCTE1 t-complex-associated-testis-expressed_1_[Source:HGNC_Symbol;Acc:11693]
    ENSG00000149609 C20orf144 chromosome_20_open_reading_frame_144_[Source:HGNC_Symbol;Acc:16137]
    ENSG00000233745
    ENSG00000135436 FAM186B family_with_sequence_similarity_186,memberB_[Source:HGNC_Symbol;Acc:25296]
    ENSG00000218416 NA Uncharacterized_protein_[Source:UniProtKB/TrEMBL;Acc:B5MC12]
    ENSG00000130173 C19orf80 chromosome_19_open_reading_frame_80_[Source:HGNC_Symbol;Acc:24933]
    ENSG00000176563 CNTD1 cyclin_N-terminal_domain_containing_1_[Source:HGNC_Symbol;Acc:26847]
    ENSG00000130812 ANGPTL6 angiopoietin-like_6_[Source:HGNC_Symbol;Acc:23140]
    ENSG00000161509 GRIN2C glutamate_receptor,ionotropic,N-methyl_D-aspartate_2C_[Source:HGNC_Symbol;Acc:4587]
    ENSG00000095303 PTGS1 prostaglandin-endoperoxide_synthase_1_(prostaglandin_G/H_synthase_and_cyclooxygenase)_[Source:HGNC_Symbol;Acc:9604]
    ENSG00000125845 BMP2 bone_morphogenetic_protein_2_[Source:HGNC_Symbol;Acc:1069]
    ENSG00000137752 CASP1 caspase_1,apoptosis-relatedcysteine_peptidase_(interleukin_1,beta,convertase)_[Source:HGNC_Symbol;Acc:1499]
    ENSG00000141682 PMAIP1 phorbol-12-myristate-13-acetate-induced_protein_1_[Source:HGNC_Symbol;Acc:9108]
    ENSG00000163394 CCKAR cholecystokinin_A_receptor_[Source:HGNC_Symbol;Acc:1570]
    ENSG00000124529 HIST1H4B histone_cluster_1,H4b[Source:HGNC_Symbol;Acc:4789]
    ENSG00000140015 KCNH5 potassium_voltage-gated_channel,subfamilyH_(eag-related),member5_[Source:HGNC_Symbol;Acc:6254]
    ENSG00000182572 HIST1H3I histone_cluster_1,H3i[Source:HGNC_Symbol;Acc:4771]
    ENSG00000083067 TRPM3 transient_receptor_potential_cation_channel,subfamilyM,member3_[Source:HGNC_Symbol;Acc:17992]
    ENSG00000172497 ACOT12 acyl-CoA_thioesterase_12_[Source:HGNC_Symbol;Acc:24436]
    ENSG00000166922 SCG5 secretogranin_V_(7B2_protein)_[Source:HGNC_Symbol;Acc:10816]
    ENSG00000183569 SERHL2 serine_hydrolase-like_2_[Source:HGNC_Symbol;Acc:29446]
    ENSG00000136960 ENPP2 ectonucleotide_pyrophosphatase/phosphodiesterase_2_[Source:HGNC_Symbol;Acc:3357]
    ENSG00000005884 ITGA3 integrin,alpha3_(antigen_CD49C,alpha3_subunit_of_VLA-3_receptor)_[Source:HGNC_Symbol;Acc:6139]
    ENSG00000197182 MIR4763 microRNA_4763_[Source:HGNC_Symbol;Acc:41677]
    ENSG00000169715 MT1E metallothionein_1E_[Source:HGNC_Symbol;Acc:7397]
    ENSG00000175592 FOSL1 FOS-like_antigen_1_[Source:HGNC_Symbol;Acc:13718]
    ENSG00000115107 STEAP3 STEAP_family_member_3,metalloreductase[Source:HGNC_Symbol;Acc:24592]
    ENSG00000117877 CD3EAP CD3e_molecule,epsilonassociated_protein_[Source:HGNC_Symbol;Acc:24219]
    ENSG00000156049 GNA14 guanine_nucleotide_binding_protein_(G_protein),alpha14_[Source:HGNC_Symbol;Acc:4382]
    ENSG00000241978 AKAP2 A_kinase_(PRKA)anchorprotein_2_[Source:HGNC_Symbol;Acc:372]
    ENSG00000157654 PALM2-AKAP2 PALM2-AKAP2_readthrough_[Source:HGNC_Symbol;Acc:33529]
    ENSG00000169231 THBS3 thrombospondin_3_[Source:HGNC_Symbol;Acc:11787]
    ENSG00000112309 B3GAT2 beta-1,3-glucuronyltransferase_2_(glucuronosyltransferase_S)_[Source:HGNC_Symbol;Acc:922]
    ENSG00000158457 TSPAN33 tetraspanin_33_[Source:HGNC_Symbol;Acc:28743]
    ENSG00000135926 TMBIM1 transmembrane_BAX_inhibitor_motif_containing_1_[Source:HGNC_Symbol;Acc:23410]
    ENSG00000075340 ADD2 adducin_2_(beta)_[Source:HGNC_Symbol;Acc:244]
    ENSG00000134138 MEIS2 Meis_homeobox_2_[Source:HGNC_Symbol;Acc:7001]
    ENSG00000152642 GPD1L glycerol-3-phosphate_dehydrogenase_1-like_[Source:HGNC_Symbol;Acc:28956]
    ENSG00000131941 RHPN2 rhophilin,RhoGTPase_binding_protein_2_[Source:HGNC_Symbol;Acc:19974]
    ENSG00000111859 NEDD9 neural_precursor_cell_expressed,developmentallydown-regulated_9_[Source:HGNC_Symbol;Acc:7733]
    ENSG00000171189 GRIK1 glutamate_receptor,ionotropic,kainate_1_[Source:HGNC_Symbol;Acc:4579]
    ENSG00000149218 ENDOD1 endonuclease_domain_containing_1_[Source:HGNC_Symbol;Acc:29129]
    ENSG00000100410 PHF5A PHD_finger_protein_5A_[Source:HGNC_Symbol;Acc:18000]
    ENSG00000228716 DHFR dihydrofolate_reductase_[Source:HGNC_Symbol;Acc:2861]
    ENSG00000158623 COPG2 coatomer_protein_complex,subunitgamma_2_[Source:HGNC_Symbol;Acc:2237]
    ENSG00000162490 C1orf187 chromosome_1_open_reading_frame_187_[Source:HGNC_Symbol;Acc:25054]
    ENSG00000181350 C17orf76 chromosome_17_open_reading_frame_76_[Source:HGNC_Symbol;Acc:32403]
    ENSG00000185386 MAPK11 mitogen-activated_protein_kinase_11_[Source:HGNC_Symbol;Acc:6873]
    ENSG00000155893 ACPL2 acid_phosphatase-like_2_[Source:HGNC_Symbol;Acc:26303]
    ENSG00000150938 CRIM1 cysteine_rich_transmembrane_BMP_regulator_1_(chordin-like)_[Source:HGNC_Symbol;Acc:2359]
    ENSG00000166337 TAF10 TAF10_RNA_polymerase_II,TATAbox_binding_protein_(TBP)-associated_factor,30kDa[Source:HGNC_Symbol;Acc:11543]
    ENSG00000198873 GRK5 G_protein-coupled_receptor_kinase_5_[Source:HGNC_Symbol;Acc:4544]
    ENSG00000102271 KLHL4 kelch-like_4_(Drosophila)_[Source:HGNC_Symbol;Acc:6355]
    ENSG00000172380 GNG12 guanine_nucleotide_binding_protein_(G_protein),gamma12_[Source:HGNC_Symbol;Acc:19663]
    ENSG00000110107 PRPF19 PRP19/PSO4_pre-mRNA_processing_factor_19_homolog_(S.cerevisiae)[Source:HGNC_Symbol;Acc:17896]
    ENSG00000162975 KCNF1 potassium_voltage-gated_channel,subfamilyF,member1_[Source:HGNC_Symbol;Acc:6246]
    ENSG00000114942 EEF1B2 eukaryotic_translation_elongation_factor_1_beta_2_[Source:HGNC_Symbol;Acc:3208]
    ENSG00000139970 RTN1 reticulon_1_[Source:HGNC_Symbol;Acc:10467]
    ENSG00000205609 EIF3CL eukaryotic_translation_initiation_factor_3,subunitC-like_[Source:HGNC_Symbol;Acc:26347]
    ENSG00000164929 BAALC brain_and_acute_leukemia,cytoplasmic[Source:HGNC_Symbol;Acc:14333]
  • Genes activated during GW15-GW17 in GE, not cortex
    id name description
    ENSG00000154736 ADAMTS5 ADAM_metallopeptidase_with_thrombospondin_type_1_motif,5[Source:HGNC_Symbol;Acc:221]
    ENSG00000159263 SIM2 single-minded_homolog_2_(Drosophila)_[Source:HGNC_Symbol;Acc:10883]
    ENSG00000163285 GABRG1 gamma-aminobutyric_acid_(GABA)Areceptor,gamma1_[Source:HGNC_Symbol;Acc:4086]
    ENSG00000169994 MYO7B myosin_VIIB_[Source:HGNC_Symbol;Acc:7607]
    ENSG00000182836 PLCXD3 phosphatidylinositol-specific_phospholipase_C,Xdomain_containing_3_[Source:HGNC_Symbol;Acc:31822]
    ENSG00000118733 OLFM3 olfactomedin_3_[Source:HGNC_Symbol;Acc:17990]
    ENSG00000176769 TCERG1L transcription_elongation_regulator_1-like_[Source:HGNC_Symbol;Acc:23533]
    ENSG00000107099 DOCK8 dedicator_of_cytokinesis_8_[Source:HGNC_Symbol;Acc:19191]
    ENSG00000179542 SLITRK4 SLIT_and_NTRK-like_family,member4_[Source:HGNC_Symbol;Acc:23502]
    ENSG00000187775 DNAH17 dynein,axonemal,heavy_chain_17_[Source:HGNC_Symbol;Acc:2946]
    ENSG00000250493 NA Uncharacterized_protein_[Source:UniProtKB/TrEMBL;Acc:E9PLU8]
    ENSG00000101188 NTSR1 neurotensin_receptor_1_(high_affinity)_[Source:HGNC_Symbol;Acc:8039]
    ENSG00000119608 PROX2 prospero_homeobox_2_[Source:HGNC_Symbol;Acc:26715]
    ENSG00000215475 SIAH3 seven_in_absentia_homolog_3_(Drosophila)_[Source:HGNC_Symbol;Acc:30553]
    ENSG00000164588 HCN1 hyperpolarization_activated_cyclic_nucleotide-gated_potassium_channel_1_[Source:HGNC_Symbol;Acc:4845]
    ENSG00000196104 SPOCK3 sparc/osteonectin,cwcvand_kazal-like_domains_proteoglycan_(testican)3[Source:HGNC_Symbol;Acc:13565]
    ENSG00000132677 RHBG Rh_family,Bglycoprotein_(gene/pseudogene)_[Source:HGNC_Symbol;Acc:14572]
    ENSG00000137573 SULF1 sulfatase_1_[Source:HGNC_Symbol;Acc:20391]
    ENSG00000185245 GP1BA glycoprotein_Ib_(platelet),alphapolypeptide_[Source:HGNC_Symbol;Acc:4439]
    ENSG00000117154 IGSF21 immunoglobin_superfamily,member21_[Source:HGNC_Symbol;Acc:28246]
    ENSG00000172215 CXCR6 chemokine_(C-X-C_motif)receptor6_[Source:HGNC_Symbol;Acc:16647]
    ENSG00000172404 DNAJB7 DnaJ_(Hsp40)homolog,subfamily_B,member7_[Source:HGNC_Symbol;Acc:24986]
    ENSG00000172568 FNDC9 fibronectin_type_III_domain_containing_9_[Source:HGNC_Symbol;Acc:33547]
    ENSG00000019505 SYT13 synaptotagmin_XIII_[Source:HGNC_Symbol;Acc:14962]
    ENSG00000166006 KCNC2 potassium_voltage-gated_channel,Shaw-relatedsubfamily,member2_[Source:HGNC_Symbol;Acc:6234]
    ENSG00000170162 VGLL2 vestigial_like_2_(Drosophila)_[Source:HGNC_Symbol;Acc:20232]
    ENSG00000174171 NA HCG1998685_[Source:UniProtKB/TrEMBL;Acc:Q8TCB4]
    ENSG00000235531 NA Uncharacterized_proteincDNA_FLJ53548_[Source:UniProtKB/TrEMBL;Acc:B7Z945]
    ENSG00000140945 CDH13 cadherin_13,H-cadherin(heart)_[Source:HGNC_Symbol;Acc:1753]
    ENSG00000169314 C22orf15 chromosome_22_open_reading_frame_15_[Source:HGNC_Symbol;Acc:15558]
    ENSG00000182463 TSHZ2 teashirt_zinc_finger_homeobox_2_[Source:HGNC_Symbol;Acc:13010]
    ENSG00000203691
    ENSG00000171819 ANGPTL7 angiopoietin-like_7_[Source:HGNC_Symbol;Acc:24078]
    ENSG00000011677 GABRA3 gamma-aminobutyric_acid_(GABA)Areceptor,alpha3_[Source:HGNC_Symbol;Acc:4077]
    ENSG00000100146 SOX10 SRY_(sex_determining_region_Y)-box_10_[Source:HGNC_Symbol;Acc:11190]
    ENSG00000132031 MATN3 matrilin_3_[Source:HGNC_Symbol;Acc:6909]
    ENSG00000138722 MMRN1 multimerin_1_[Source:HGNC_Symbol;Acc:7178]
    ENSG00000156675 RAB11FIP1 RAB11_family_interacting_protein_1_(class_I)_[Source:HGNC_Symbol;Acc:30265]
    ENSG00000180071 ANKRD18A ankyrin_repeat_domain_18A_[Source:HGNC_Symbol;Acc:23643]
    ENSG00000214872 SMTNL1 smoothelin-like_1_[Source:HGNC_Symbol;Acc:32394]
    ENSG00000019102 VSIG2 V-set_and_immunoglobulin_domain_containing_2_[Source:HGNC_Symbol;Acc:17149]
    ENSG00000255974 CYP2A6 cytochrome_P450,family2,subfamilyA,polypeptide6_[Source:HGNC_Symbol;Acc:2610]
    ENSG00000106341 PPP1R17 protein_phosphatase_1,regulatorysubunit_17_[Source:HGNC_Symbol;Acc:16973]
    ENSG00000106128 GHRHR growth_hormone_releasing_hormone_receptor_[Source:HGNC_Symbol;Acc:4266]
    ENSG00000111249 CUX2 cut-like_homeobox_2_[Source:HGNC_Symbol;Acc:19347]
    ENSG00000133640 LRRIQ1 leucine-rich_repeats_and_IQ_motif_containing_1_[Source:HGNC_Symbol;Acc:25708]
    ENSG00000166359 WDR88 WD_repeat_domain_88_[Source:HGNC_Symbol;Acc:26999]
    ENSG00000180269 GPR139 G_protein-coupled_receptor_139_[Source:HGNC_Symbol;Acc:19995]
    ENSG00000182601 HS3ST4 heparan_sulfate_(glucosamine)3-O-sulfotransferase4_[Source:HGNC_Symbol;Acc:5200]
    ENSG00000205838 TTC23L tetratricopeptide_repeat_domain_23-like_[Source:HGNC_Symbol;Acc:26355]
    ENSG00000110852 CLEC2B C-type_lectin_domain_family_2,memberB_[Source:HGNC_Symbol;Acc:2053]
    ENSG00000134115 CNTN6 contactin_6_[Source:HGNC_Symbol;Acc:2176]
    ENSG00000134602 NA Serine/threonine-protein_kinase_MST4_[Source:UniProtKB/Swiss-Prot;Acc:Q9P289]
    ENSG00000170571 EMB embigin_[Source:HGNC_Symbol;Acc:30465]
    ENSG00000185862 EVI2B ecotropic_viral_integration_site_2B_[Source:HGNC_Symbol;Acc:3500]
    ENSG00000179038
    ENSG00000164484 TMEM200A transmembrane_protein_200A_[Source:HGNC_Symbol;Acc:21075]
    ENSG00000183032 SLC25A21 solute_carrier_family_25_(mitochondrial_oxodicarboxylate_carrier),member21_[Source:HGNC_Symbol;Acc:14411]
    ENSG00000091879 ANGPT2 angiopoietin_2_[Source:HGNC_Symbol;Acc:485]
    ENSG00000101292 PROKR2 prokineticin_receptor_2_[Source:HGNC_Symbol;Acc:15836]
    ENSG00000153071 DAB2 disabled_homolog_2,mitogen-responsivephosphoprotein_(Drosophila)_[Source:HGNC_Symbol;Acc:2662]
    ENSG00000184566 NA HCG1785179PRO1787Uncharacterized_protein_[Source:UniProtKB/TrEMBL;Acc:Q9P1G6]
    ENSG00000154760 SLFN13 schlafen_family_member_13_[Source:HGNC_Symbol;Acc:26481]
    ENSG00000203811 HIST2H3C histone_cluster_2,H3c[Source:HGNC_Symbol;Acc:20503]
    ENSG00000102053 ZC3H12B zinc_finger_CCCH-type_containing_12B_[Source:HGNC_Symbol;Acc:17407]
    ENSG00000106236 NPTX2 neuronal_pentraxin_II_[Source:HGNC_Symbol;Acc:7953]
    ENSG00000186493 C5orf38 chromosome_5_open_reading_frame_38_[Source:HGNC_Symbol;Acc:24226]
    ENSG00000172123 SLFN12 schlafen_family_member_12_[Source:HGNC_Symbol;Acc:25500]
    ENSG00000178235 SLITRK1 SLIT_and_NTRK-like_family,member1_[Source:HGNC_Symbol;Acc:20297]
    ENSG00000197410 DCHS2 dachsous_2_(Drosophila)_[Source:HGNC_Symbol;Acc:23111]
    ENSG00000164100 NDST3 N-deacetylase/N-sulfotransferase_(heparan_glucosaminyl)3[Source:HGNC_Symbol;Acc:7682]
    ENSG00000033122 LRRC7 leucine_rich_repeat_containing_7_[Source:HGNC_Symbol;Acc:18531]
    ENSG00000073734 ABCB11 ATP-binding_cassette,sub-familyB_(MDR/TAP),member11_[Source:HGNC_Symbol;Acc:42]
    ENSG00000081479 LRP2 low_density_lipoprotein_receptor-related_protein_2_[Source:HGNC_Symbol;Acc:6694]
    ENSG00000203815 NA UPF0627_protein_ENSP00000358171_[Source:UniProtKB/Swiss-Prot;Acc:Q6ZW35]
    ENSG00000214646
    ENSG00000099260 PALMD palmdelphin_[Source:HGNC_Symbol;Acc:15846]
    ENSG00000115138 POMC proopiomelanocortin_[Source:HGNC_Symbol;Acc:9201]
    ENSG00000136457 CHAD chondroadherin_[Source:HGNC_Symbol;Acc:1909]
    ENSG00000140287 HDC histidine_decarboxylase_[Source:HGNC_Symbol;Acc:4855]
    ENSG00000187323 DCC deleted_in_colorectal_carcinoma_[Source:HGNC_Symbol;Acc:2701]
    ENSG00000238243 OR2W3 olfactory_receptor,family2,subfamilyW,member3_[Source:HGNC_Symbol;Acc:15021]
    ENSG00000001561 ENPP4 ectonucleotide_pyrophosphatase/phosphodiesterase_4_(putative)_[Source:HGNC_Symbol;Acc:3359]
    ENSG00000106852 LHX6 LIM_homeobox_6_[Source:HGNC_Symbol;Acc:21735]
    ENSG00000139537 CCDC65 coiled-coil_domain_containing_65_[Source:HGNC_Symbol;Acc:29937]
    ENSG00000183671 GPR1 G_protein-coupled_receptor_1_[Source:HGNC_Symbol;Acc:4463]
    ENSG00000197565 COL4A6 collagen,typeIV,alpha6_[Source:HGNC_Symbol;Acc:2208]
    ENSG00000179520 SLC17A8 solute_carrier_family_17_(sodium-dependent_inorganic_phosphate_cotransporter),member8_[Source:HGNC_Symbol;Acc:20151]
    ENSG00000148935 GAS2 growth_arrest-specific_2_[Source:HGNC_Symbol;Acc:4167]
    ENSG00000183111 ARHGEF37 Rho_guanine_nucleotide_exchange_factor_(GEF)37[Source:HGNC_Symbol;Acc:34430]
    ENSG00000007944 MYLIP myosin_regulatory_light_chain_interacting_protein_[Source:HGNC_Symbol;Acc:21155]
    ENSG00000139278 GLIPR1 GLI_pathogenesis-related_1_[Source:HGNC_Symbol;Acc:17001]
    ENSG00000162722 TRIM58 tripartite_motif_containing_58_[Source:HGNC_Symbol;Acc:24150]
    ENSG00000157005 SST somatostatin_[Source:HGNC_Symbol;Acc:11329]
    ENSG00000086300 SNX10 sorting_nexin_10_[Source:HGNC_Symbol;Acc:14974]
    ENSG00000100433 KCNK10 potassium_channel,subfamilyK,member10_[Source:HGNC_Symbol;Acc:6273]
    ENSG00000137877 SPTBN5 spectrin,beta,non-erythrocytic_5_[Source:HGNC_Symbol;Acc:15680]
    ENSG00000006283 CACNA1G calcium_channel,voltage-dependent,T_type,alpha1G_subunit_[Source:HGNC_Symbol;Acc:1394]
    ENSG00000087303 NID2 nidogen_2_(osteonidogen)_[Source:HGNC_Symbol;Acc:13389]
    ENSG00000141449 GREB1L growth_regulation_by_estrogen_in_breast_cancer-like_[Source:HGNC_Symbol;Acc:31042]
    ENSG00000198822 GRM3 glutamate_receptor,metabotropic3_[Source:HGNC_Symbol;Acc:4595]
    ENSG00000164418 GRIK2 glutamate_receptor,ionotropic,kainate_2_[Source:HGNC_Symbol;Acc:4580]
    ENSG00000181234 TMEM132C transmembrane_protein_132C_[Source:HGNC_Symbol;Acc:25436]
    ENSG00000213088 DARC Duffy_blood_group,chemokinereceptor_[Source:HGNC_Symbol;Acc:4035]
    ENSG00000183287 CCBE1 collagen_and_calcium_binding_EGF_domains_1_[Source:HGNC_Symbol;Acc:29426]
    ENSG00000170561 IRX2 iroquois_homeobox_2_[Source:HGNC_Symbol;Acc:14359]
    ENSG00000174599 TRAM1L1 translocation_associated_membrane_protein_1-like_1_[Source:HGNC_Symbol;Acc:28371]
    ENSG00000077942 FBLN1 fibulin_1_[Source:HGNC_Symbol;Acc:3600]
    ENSG00000170091 NA Neuron-specific_protein_family_member_2_[Source:UniProtKB/Swiss-Prot;Acc:Q9Y328]
    ENSG00000229415 SFTA3 surfactant_associated_3_[Source:HGNC_Symbol;Acc:18387]
    ENSG00000204335 SP5 Sp5_transcription_factor_[Source:HGNC_Symbol;Acc:14529]
    ENSG00000163251 FZD5 frizzled_family_receptor_5_[Source:HGNC_Symbol;Acc:4043]
    ENSG00000196083 IL1RAP interleukin_1_receptor_accessory_protein_[Source:HGNC_Symbol;Acc:5995]
    ENSG00000127528 KLF2 Kruppel-like_factor_2_(lung)_[Source:HGNC_Symbol;Acc:6347]
    ENSG00000173848 NET1 neuroepithelial_cell_transforming_1_[Source:HGNC_Symbol;Acc:14592]
    ENSG00000056291 NPFFR2 neuropeptide_FF_receptor_2_[Source:HGNC_Symbol;Acc:4525]
    ENSG00000084628 NKAIN1 Na+/K+transportingATPase_interacting_1_[Source:HGNC_Symbol;Acc:25743]
    ENSG00000169302 STK32A serine/threonine_kinase_32A_[Source:HGNC_Symbol;Acc:28317]
    ENSG00000234409
    ENSG00000137968 SLC44A5 solute_carrier_family_44,member5_[Source:HGNC_Symbol;Acc:28524]
    ENSG00000104368 PLAT plasminogen_activator,tissue[Source:HGNC_Symbol;Acc:9051]
    ENSG00000164574 GALNT10 UDP-N-acetyl-alpha-D-galactosamine:polypeptide_N-acetylgalactosaminyltransferase_10_(GalNAc-T10)_[Source:HGNC_Symbol;Acc:19873]
    ENSG00000101986 ABCD1 ATP-binding_cassette,sub-familyD_(ALD),member1_[Source:HGNC_Symbol;Acc:61]
    ENSG00000137166 FOXP4 forkhead_box_P4_[Source:HGNC_Symbol;Acc:20842]
    ENSG00000148798 INA internexin_neuronal_intermediate_filament_protein,alpha[Source:HGNC_Symbol;Acc:6057]
    ENSG00000114923 SLC4A3 solute_carrier_family_4,anionexchanger,member3_[Source:HGNC_Symbol;Acc:11029]
    ENSG00000134508 CABLES1 Cdk5_and_Abl_enzyme_substrate_1_[Source:HGNC_Symbol;Acc:25097]
    ENSG00000138083 SIX3 SIX_homeobox_3_[Source:HGNC_Symbol;Acc:10889]
    ENSG00000170891 CYTL1 cytokine-like_1_[Source:HGNC_Symbol;Acc:24435]
    ENSG00000181744 C3orf58 chromosome_3_open_reading_frame_58_[Source:HGNC_Symbol;Acc:28490]
    ENSG00000198189 HSD17B11 hydroxysteroid_(17-beta)dehydrogenase11_[Source:HGNC_Symbol;Acc:22960]
    ENSG00000166426 CRABP1 cellular_retinoic_acid_binding_protein_1_[Source:HGNC_Symbol;Acc:2338]
    ENSG00000182771 GRID1 glutamate_receptor,ionotropic,delta_1_[Source:HGNC_Symbol;Acc:4575]
    ENSG00000076356 PLXNA2 plexin_A2_[Source:HGNC_Symbol;Acc:9100]
    ENSG00000170677 SOCS6 suppressor_of_cytokine_signaling_6_[Source:HGNC_Symbol;Acc:16833]
    ENSG00000159921 GNE glucosamine_(UDP-N-acetyl)-2-epimerase/N-acetylmannosamine_kinase_[Source:HGNC_Symbol;Acc:23657]
    ENSG00000111145 ELK3 ELK3,ETS-domainprotein_(SRF_accessory_protein_2)_[Source:HGNC_Symbol;Acc:3325]
    ENSG00000119042 SATB2 SATB_homeobox_2_[Source:HGNC_Symbol;Acc:21637]
    ENSG00000254402 LRRC24 leucine_rich_repeat_containing_24_[Source:HGNC_Symbol;Acc:28947]
    ENSG00000106799 TGFBR1 transforming_growth_factor,betareceptor_1_[Source:HGNC_Symbol;Acc:11772]
    ENSG00000151692 RNF144A ring_finger_protein_144A_[Source:HGNC_Symbol;Acc:20457]
    ENSG00000158106 RHPN1 rhophilin,RhoGTPase_binding_protein_1_[Source:HGNC_Symbol;Acc:19973]
    ENSG00000112414 GPR126 G_protein-coupled_receptor_126_[Source:HGNC_Symbol;Acc:13841]
    ENSG00000145147 SLIT2 slit_homolog_2_(Drosophila)_[Source:HGNC_Symbol;Acc:11086]
    ENSG00000136352 NKX2-1 NK2_homeobox_1_[Source:HGNC_Symbol;Acc:11825]
    ENSG00000126016 AMOT angiomotin_[Source:HGNC_Symbol;Acc:17810]
    ENSG00000148824 NA Mitochondrial_GTPase_1_[Source:UniProtKB/Swiss-Prot;Acc:Q9BT17]
    ENSG00000162627 SNX7 sorting_nexin_7_[Source:HGNC_Symbol;Acc:14971]
    ENSG00000146950 SHROOM2 shroom_family_member_2_[Source:HGNC_Symbol;Acc:630]
    ENSG00000162706 CADM3 cell_adhesion_molecule_3_[Source:HGNC_Symbol;Acc:17601]
    ENSG00000163110 PDLIM5 PDZ_and_LIM_domain_5_[Source:HGNC_Symbol;Acc:17468]
    ENSG00000110108 TMEM109 transmembrane_protein_109_[Source:HGNC_Symbol;Acc:28771]
    ENSG00000169116 PARM1 prostate_androgen-regulated_mucin-like_protein_1_[Source:HGNC_Symbol;Acc:24536]
    ENSG00000169184 MN1 meningioma_(disrupted_in_balanced_translocation)1[Source:HGNC_Symbol;Acc:7180]
    ENSG00000213390 ARHGAP19 Rho_GTPase_activating_protein_19_[Source:HGNC_Symbol;Acc:23724]
    ENSG00000104332 SFRP1 secreted_frizzled-related_protein_1_[Source:HGNC_Symbol;Acc:10776]
    ENSG00000132561 MATN2 matrilin_2_[Source:HGNC_Symbol;Acc:6908]
    ENSG00000144730 IL17RD interleukin_17_receptor_D_[Source:HGNC_Symbol;Acc:17616]
    ENSG00000254706
    ENSG00000154146 NRGN neurogranin_(protein_kinase_C_substrate,RC3)[Source:HGNC_Symbol;Acc:8000]
    ENSG00000101608 MYL12A myosin,lightchain_12A,regulatory,non-sarcomeric_[Source:HGNC_Symbol;Acc:16701]
    ENSG00000188559 RALGAPA2 Ral_GTPase_activating_protein,alphasubunit_2_(catalytic)_[Source:HGNC_Symbol;Acc:16207]
    ENSG00000106484 MEST mesoderm_specific_transcript_homolog_(mouse)_[Source:HGNC_Symbol;Acc:7028]
    ENSG00000065320 NTN1 netrin_1_[Source:HGNC_Symbol;Acc:8029]
    ENSG00000182580 EPHB3 EPH_receptor_B3_[Source:HGNC_Symbol;Acc:3394]

Stage-specific DE gene shared by Crotex and GE

  1. GW13-15:UP, GW15-17:UP;
    No genes
  2. GW13-15:UP, GW15-17:DN;
    id name description
    ENSG00000168542 COL3A1 collagen,typeIII,alpha1_[Source:HGNC_Symbol;Acc:2201]
    ENSG00000133636 NTS neurotensin_[Source:HGNC_Symbol;Acc:8038]
    ENSG00000066032 CTNNA2 catenin_(cadherin-associated_protein),alpha2_[Source:HGNC_Symbol;Acc:2510]
    ENSG00000135063 FAM189A2 family_with_sequence_similarity_189,memberA2_[Source:HGNC_Symbol;Acc:24820]
    ENSG00000214401
    ENSG00000099984 GSTT2 glutathione_S-transferase_theta_2_[Source:HGNC_Symbol;Acc:4642]
    ENSG00000238083 LRRC37A2 leucine_rich_repeat_containing_37,memberA2_[Source:HGNC_Symbol;Acc:32404]
    ENSG00000101255 TRIB3 tribbles_homolog_3_(Drosophila)_[Source:HGNC_Symbol;Acc:16228]
    ENSG00000160284 C21orf56 chromosome_21_open_reading_frame_56_[Source:HGNC_Symbol;Acc:1298]
  3. GW13-15:DN, GW15-17:UP;
    id name description
    ENSG00000022556 NLRP2 NLR_family,pyrindomain_containing_2_[Source:HGNC_Symbol;Acc:22948]
    ENSG00000225607 NA Uncharacterized_proteincDNA_FLJ60024,highlysimilar_to_Cytochrome_P450_4F12__[Source:UniProtKB/TrEMBL;Acc:B4DNA9]
    ENSG00000147813 NAPRT1 nicotinate_phosphoribosyltransferase_domain_containing_1_[Source:HGNC_Symbol;Acc:30450]
    ENSG00000167654 ATCAY ataxia,cerebellar,Cayman_type_[Source:HGNC_Symbol;Acc:779]
  4. GW13-15:DN, GW15-17:DN;
    No genes
  5. GW13-15:UP, GW15-17:not DE;
    id name description
    ENSG00000149054 ZNF215 zinc_finger_protein_215_[Source:HGNC_Symbol;Acc:13007]
    ENSG00000215845 TSTD1 thiosulfate_sulfurtransferase_(rhodanese)-like_domain_containing_1_[Source:HGNC_Symbol;Acc:35410]
    ENSG00000100336 APOL4 apolipoprotein_L,4[Source:HGNC_Symbol;Acc:14867]
    ENSG00000163823 CCR1 chemokine_(C-C_motif)receptor1_[Source:HGNC_Symbol;Acc:1602]
    ENSG00000169220 RGS14 regulator_of_G-protein_signaling_14_[Source:HGNC_Symbol;Acc:9996]
    ENSG00000203804 C1orf138 chromosome_1_open_reading_frame_138_[Source:HGNC_Symbol;Acc:32041]
    ENSG00000204520 MICA MHC_class_I_polypeptide-related_sequence_A_[Source:HGNC_Symbol;Acc:7090]
    ENSG00000080573 COL5A3 collagen,typeV,alpha3_[Source:HGNC_Symbol;Acc:14864]
    ENSG00000165379 LRFN5 leucine_rich_repeat_and_fibronectin_type_III_domain_containing_5_[Source:HGNC_Symbol;Acc:20360]
    ENSG00000213402 PTPRCAP protein_tyrosine_phosphatase,receptortype,C-associatedprotein_[Source:HGNC_Symbol;Acc:9667]
    ENSG00000139155 SLCO1C1 solute_carrier_organic_anion_transporter_family,member1C1_[Source:HGNC_Symbol;Acc:13819]
    ENSG00000187773 FAM69C family_with_sequence_similarity_69,memberC_[Source:HGNC_Symbol;Acc:31729]
    ENSG00000133216 EPHB2 EPH_receptor_B2_[Source:HGNC_Symbol;Acc:3393]
    ENSG00000119737 GPR75 G_protein-coupled_receptor_75_[Source:HGNC_Symbol;Acc:4526]
    ENSG00000126790 C14orf149 chromosome_14_open_reading_frame_149_[Source:HGNC_Symbol;Acc:20488]
    ENSG00000162733 DDR2 discoidin_domain_receptor_tyrosine_kinase_2_[Source:HGNC_Symbol;Acc:2731]
    ENSG00000108231 LGI1 leucine-rich,gliomainactivated_1_[Source:HGNC_Symbol;Acc:6572]
    ENSG00000161921 CXCL16 chemokine_(C-X-C_motif)ligand16_[Source:HGNC_Symbol;Acc:16642]
    ENSG00000119673 ACOT2 acyl-CoA_thioesterase_2_[Source:HGNC_Symbol;Acc:18431]
    ENSG00000135046 ANXA1 annexin_A1_[Source:HGNC_Symbol;Acc:533]
    ENSG00000215790 SLC35E2 solute_carrier_family_35,memberE2_[Source:HGNC_Symbol;Acc:20863]
    ENSG00000157150 TIMP4 TIMP_metallopeptidase_inhibitor_4_[Source:HGNC_Symbol;Acc:11823]
    ENSG00000170579 DLGAP1 discs,large(Drosophila)homolog-associatedprotein_1_[Source:HGNC_Symbol;Acc:2905]
    ENSG00000143252 SDHC succinate_dehydrogenase_complex,subunitC,integralmembrane_protein,15kDa[Source:HGNC_Symbol;Acc:10682]
    ENSG00000107796 ACTA2 actin,alpha2,smoothmuscle,aorta[Source:HGNC_Symbol;Acc:130]
    ENSG00000124193 SRSF6 serine/arginine-rich_splicing_factor_6_[Source:HGNC_Symbol;Acc:10788]
    ENSG00000152661 GJA1 gap_junction_protein,alpha1,43kDa[Source:HGNC_Symbol;Acc:4274]
    ENSG00000184110 EIF3C eukaryotic_translation_initiation_factor_3,subunitC_[Source:HGNC_Symbol;Acc:3279]
  6. GW13-15:DN, GW15-17:not DE;
    id name description
    ENSG00000166923 GREM1 gremlin_1_[Source:HGNC_Symbol;Acc:2001]
    ENSG00000164123 C4orf45 chromosome_4_open_reading_frame_45_[Source:HGNC_Symbol;Acc:26342]
    ENSG00000008196 TFAP2B transcription_factor_AP-2_beta_(activating_enhancer_binding_protein_2_beta)_[Source:HGNC_Symbol;Acc:11743]
    ENSG00000186897 C1QL4 complement_component_1,qsubcomponent-like_4_[Source:HGNC_Symbol;Acc:31416]
    ENSG00000054598 FOXC1 forkhead_box_C1_[Source:HGNC_Symbol;Acc:3800]
    ENSG00000104808 DHDH dihydrodiol_dehydrogenase_(dimeric)_[Source:HGNC_Symbol;Acc:17887]
    ENSG00000124813 RUNX2 runt-related_transcription_factor_2_[Source:HGNC_Symbol;Acc:10472]
    ENSG00000173068 BNC2 basonuclin_2_[Source:HGNC_Symbol;Acc:30988]
    ENSG00000165929 TC2N tandem_C2_domains,nuclear[Source:HGNC_Symbol;Acc:19859]
    ENSG00000157064 NMNAT2 nicotinamide_nucleotide_adenylyltransferase_2_[Source:HGNC_Symbol;Acc:16789]
    ENSG00000243244 STON1 stonin_1_[Source:HGNC_Symbol;Acc:17003]
    ENSG00000173809 TDRD12 tudor_domain_containing_12_[Source:HGNC_Symbol;Acc:25044]
    ENSG00000135333 EPHA7 EPH_receptor_A7_[Source:HGNC_Symbol;Acc:3390]
    ENSG00000231421
    ENSG00000168675 C18orf1 chromosome_18_open_reading_frame_1_[Source:HGNC_Symbol;Acc:1224]
    ENSG00000156395 SORCS3 sortilin-related_VPS10_domain_containing_receptor_3_[Source:HGNC_Symbol;Acc:16699]
    ENSG00000204103 MAFB v-maf_musculoaponeurotic_fibrosarcoma_oncogene_homolog_B_(avian)_[Source:HGNC_Symbol;Acc:6408]
    ENSG00000168447 SCNN1B sodium_channel,nonvoltage-gated1,beta[Source:HGNC_Symbol;Acc:10600]
    ENSG00000106546 AHR aryl_hydrocarbon_receptor_[Source:HGNC_Symbol;Acc:348]
    ENSG00000117598 NA Lipid_phosphate_phosphatase-related_protein_type_5_[Source:UniProtKB/Swiss-Prot;Acc:Q32ZL2]
    ENSG00000120322 PCDHB8 protocadherin_beta_8_[Source:HGNC_Symbol;Acc:8693]
    ENSG00000250305 NA Putative_methyltransferase_KIAA1456_[Source:UniProtKB/Swiss-Prot;Acc:Q9P272]
    ENSG00000106868 SUSD1 sushi_domain_containing_1_[Source:HGNC_Symbol;Acc:25413]
    ENSG00000183943 PRKX protein_kinase,X-linked[Source:HGNC_Symbol;Acc:9441]
    ENSG00000204060 FOXO6 forkhead_box_O6_[Source:HGNC_Symbol;Acc:24814]
    ENSG00000170941 NA Uncharacterized_protein_KIAA1456_[Source:UniProtKB/Swiss-Prot;Acc:Q8N9K7]
    ENSG00000063438 AHRR aryl-hydrocarbon_receptor_repressor_[Source:HGNC_Symbol;Acc:346]
    ENSG00000107902 LHPP phospholysine_phosphohistidine_inorganic_pyrophosphate_phosphatase_[Source:HGNC_Symbol;Acc:30042]
    ENSG00000169436 COL22A1 collagen,typeXXII,alpha1_[Source:HGNC_Symbol;Acc:22989]
    ENSG00000184985 SORCS2 sortilin-related_VPS10_domain_containing_receptor_2_[Source:HGNC_Symbol;Acc:16698]
    ENSG00000163328 GPR155 G_protein-coupled_receptor_155_[Source:HGNC_Symbol;Acc:22951]
    ENSG00000173598 NUDT4 nudix_(nucleoside_diphosphate_linked_moiety_X)-type_motif_4_[Source:HGNC_Symbol;Acc:8051]
    ENSG00000114200 BCHE butyrylcholinesterase_[Source:HGNC_Symbol;Acc:983]
    ENSG00000183722 LHFP lipoma_HMGIC_fusion_partner_[Source:HGNC_Symbol;Acc:6586]
    ENSG00000139722 VPS37B vacuolar_protein_sorting_37_homolog_B_(S.cerevisiae)[Source:HGNC_Symbol;Acc:25754]
  7. GW13-15:not DE, GW15-17:UP;
    id name description
    ENSG00000145247 OCIAD2 OCIA_domain_containing_2_[Source:HGNC_Symbol;Acc:28685]
    ENSG00000070748 CHAT choline_O-acetyltransferase_[Source:HGNC_Symbol;Acc:1912]
    ENSG00000165659 DACH1 dachshund_homolog_1_(Drosophila)_[Source:HGNC_Symbol;Acc:2663]
    ENSG00000165983 PTER phosphotriesterase_related_[Source:HGNC_Symbol;Acc:9590]
    ENSG00000139220 PPFIA2 protein_tyrosine_phosphatase,receptortype,fpolypeptide_(PTPRF),interactingprotein_(liprin),alpha2_[Source:HGNC_Symbol;Acc:9246]
    ENSG00000147255 IGSF1 immunoglobulin_superfamily,member1_[Source:HGNC_Symbol;Acc:5948]
    ENSG00000146233 CYP39A1 cytochrome_P450,family39,subfamilyA,polypeptide1_[Source:HGNC_Symbol;Acc:17449]
    ENSG00000181649 PHLDA2 pleckstrin_homology-like_domain,familyA,member2_[Source:HGNC_Symbol;Acc:12385]
    ENSG00000204516 MICB MHC_class_I_polypeptide-related_sequence_B_[Source:HGNC_Symbol;Acc:7091]
    ENSG00000164692 COL1A2 collagen,typeI,alpha2_[Source:HGNC_Symbol;Acc:2198]
    ENSG00000114805 PLCH1 phospholipase_C,eta1_[Source:HGNC_Symbol;Acc:29185]
    ENSG00000051523 CYBA cytochrome_b-245,alphapolypeptide_[Source:HGNC_Symbol;Acc:2577]
    ENSG00000145703 IQGAP2 IQ_motif_containing_GTPase_activating_protein_2_[Source:HGNC_Symbol;Acc:6111]
    ENSG00000165072 MAMDC2 MAM_domain_containing_2_[Source:HGNC_Symbol;Acc:23673]
    ENSG00000130558 OLFM1 olfactomedin_1_[Source:HGNC_Symbol;Acc:17187]
    ENSG00000120318 ARAP3 ArfGAP_with_RhoGAP_domain,ankyrinrepeat_and_PH_domain_3_[Source:HGNC_Symbol;Acc:24097]
    ENSG00000198750 GATSL2 GATS_protein-like_2_[Source:HGNC_Symbol;Acc:37073]
    ENSG00000162849 KIF26B kinesin_family_member_26B_[Source:HGNC_Symbol;Acc:25484]
    ENSG00000134333 LDHA lactate_dehydrogenase_A_[Source:HGNC_Symbol;Acc:6535]
    ENSG00000064666 CNN2 calponin_2_[Source:HGNC_Symbol;Acc:2156]
  8. GW13-15:not DE, GW15-17:DN;
    id name description
    ENSG00000259210
    ENSG00000198650 TAT tyrosine_aminotransferase_[Source:HGNC_Symbol;Acc:11573]
    ENSG00000163053 SLC16A14 solute_carrier_family_16,member14_(monocarboxylic_acid_transporter_14)_[Source:HGNC_Symbol;Acc:26417]
    ENSG00000125637 PSD4 pleckstrin_and_Sec7_domain_containing_4_[Source:HGNC_Symbol;Acc:19096]
    ENSG00000153822 KCNJ16 potassium_inwardly-rectifying_channel,subfamilyJ,member16_[Source:HGNC_Symbol;Acc:6262]
    ENSG00000188803 SHISA6 shisa_homolog_6_(Xenopus_laevis)_[Source:HGNC_Symbol;Acc:34491]
    ENSG00000127952 STYXL1 serine/threonine/tyrosine_interacting-like_1_[Source:HGNC_Symbol;Acc:18165]
    ENSG00000150907 FOXO1 forkhead_box_O1_[Source:HGNC_Symbol;Acc:3819]
    ENSG00000076344 RGS11 regulator_of_G-protein_signaling_11_[Source:HGNC_Symbol;Acc:9993]
    ENSG00000174938 SEZ6L2 seizure_related_6_homolog_(mouse)-like_2_[Source:HGNC_Symbol;Acc:30844]
    ENSG00000122694 GLIPR2 GLI_pathogenesis-related_2_[Source:HGNC_Symbol;Acc:18007]
    ENSG00000167774 NDUFA7 NADH_dehydrogenase_(ubiquinone)1alpha_subcomplex,7,14.5kDa_[Source:HGNC_Symbol;Acc:7691]
    ENSG00000132164 SLC6A11 solute_carrier_family_6_(neurotransmitter_transporter,GABA),member_11_[Source:HGNC_Symbol;Acc:11044]

DAVID enrichment for DE genes

  • GW associated DE genes shared by cell types show no enrichment due to small gene lists.
  • GW15 vs GW 13: calcium ion binding in cortex UP and GE DN, neurogenesis in cortex DN.
  • GW17 vs GW 15: neurogenesis in GE, no enrichment in cortex.
  • GW17 vs GW 13: calcium ion binding in cortex UP and GE UP, neurogenesis in GE DN.

Isoform analysis

Sample DE_genes DE_exons with_expressed_genes isoform_exons exclude_DE_genes isoform_genes GW
Cortex-HuFNSC01_Cortex-HuFNSC03 565 28637 16045 8044 7772 2490 17 vs 15
Cortex-HuFNSC01_Cortex-HuFNSC04 530 27428 13200 6365 6134 2167 17 vs 13
Cortex-HuFNSC02_Cortex-HuFNSC03 681 28963 16765 7961 7630 2425 17 vs 15
Cortex-HuFNSC02_Cortex-HuFNSC04 722 29416 13894 6351 6011 2105 17 vs 13
Cortex-HuFNSC03_Cortex-HuFNSC04 642 26826 12185 5818 5479 1994 15 vs 13
GE-HuFNSC01_GE-HuFNSC03 861 31361 14725 5880 5458 2041 17 vs 15
GE-HuFNSC01_GE-HuFNSC04 883 34359 15889 6401 5996 2049 17 vs 13
GE-HuFNSC02_GE-HuFNSC03 921 32827 15557 5773 5306 1965 17 vs 15
GE-HuFNSC02_GE-HuFNSC04 869 34699 16012 6113 5711 1986 17 vs 13
GE-HuFNSC03_GE-HuFNSC04 545 24752 12223 4582 4422 1454 15 vs 13